Alright, I just finished a list of missing Spirits (warning: lots of spoiler tags)
- Fake Smash Ball (★★★) -> Smash Ball (★★★★)
- Final Destination (★★★★)
- Kirby Hats (★)
- Targets (★)
- Fire Primid (★★)
- Metal Primid (★★★)
- R.O.B. Sentry (★★★)
- R.O.B. Blaster (★★)
- R.O.B. Launcher (★)
- Spaak (★)
- Cymul (★★★)
- Greap (★★)
- Glice, Glire and Glunder (★)
- Poppant (★)
- Towtow (★★)
- Borboras (★★)
- Ticken (★)
- Auroros (★★)
- Bucculus (★★)
- Buckot (★)
- Floow (★★★)
- Armight (★)
- Roader (★)
- Autolance (★)
- Nagagog (★★★)
- Puppit (★)
- Trowlon (★★)
- Shellpod (★★)
- Bombed (★★)
- Shaydas (★★★)
- Gamyga (★)
- Armank (★★★)
- Fighting Mii Team (★★)
- Master Fortress (★★★)
- Bumper (★★★)
- Containers (★★)
- Food (★)
- Party Ball (★★★)
- Assist Trophy (★★★★)
- Blast Box (★)
- Gooey Bomb (★★)
- Smoke Ball (★★)
- CD (★★★)
- Healing Sprout (★) -> Healing Field (★★★)
- Mario Bros. (★★★)
- Cheep Cheep (★★)
- Buzzy Beetle (★★★)
- Lava Bubble (★)
- Phanto (★★★)
- Pokey (★★)
- Mario, Luigi, Peach & Toad (★★★★)
- Dry Bones (★★)
- Spike (★)
- Reznor (★★)
- Fuzzy (★)
- Monty Mole (★★)
- Biddybud (★★)
- Spring Mario (★★★)
- Bee Mario (★★)
- Meowser (★★★)
- The Broodals (★★)
- Ghosts (Luigi’s Mansion) (★★)
- The Axem Rangers (★★)
- Smithy (★★★)
- Cackletta (★★★)
- Popple (★★)
- Stuffwell (★)
- Midbus (★★★)
- Dark Bowser (★★★★)
- The Koopa Bros. (★)
- Parakarry (★★)
- Watt (★★★)
- Bow (★)
- Goombella (★★★)
- Koops (★★★)
- Rawk Hawk (★★)
- Count Bleck (★★★)
- Kersti (★)
- Rabbid Luigi (★★)
- Rabbid Yoshi (★★)
- Super Sluggers (★★★)
- Hammer (★) -> Golden Hammer (★★★)
- Metal Box (★★★)
- Lightning Bolt (★)
- Fire Bar (★)
- POW Block (★★)
- Blue Shell (★★★★)
- Boomerang Flower (★)
- Double Cherry (★★)
- Barrel Cannon (★★★)
- Spring (★★)
- KAOS (★★★)
- Wizpig (★★★)
- Snowmads (★)
- King Harkinian (★★★★)
- Dark Link (★★★★)
- Farore (★★)
- Ganondorf (The Wind Waker) (★★★)
- Heart Container (★★★★)
- Deku Nut (★★)
- Bombchu (★★)
- Beetle (★★)
- Gust Bellows (★★★)
- Metroid Prime (★★★★)
- SA-X (★★★)
- Screw Attack (★)
- Fly Guy (★)
- Poochy (★★★)
- Baby Luigi (★★★)
- Baby Donkey Kong (★)
- Baby Wario (★★)
- Yoshi’s Egg (★★)
- 0 (★★★) -> 02 (★★★★)
- Adeleine (★) -> Adeleine & Ribbon (★★★)
- Dark Meta Knight (★★)
- Maxim Tomato (★★★)
- Superspicy Curry (★★)
- Smart Bomb (★★★)
- Poké Ball (★) -> Master Ball (★★★★)
- Beedrill (★★)
- Cyndaquil (★★)
- Hoppip (★★)
- Plusle & Minun (★★)
- Gulpin (★★)
- Wailord (★★★)
- Snorunt (★)
- Mawile (★) -> Mega Mawile (★★)
- Regirock, Registeel & Regice (★★★)
- Infernape (★★★)
- Drifloon (★)
- Pachirisu (★)
- Weavile (★★★)
- Electrivire (★★★)
- Snivy (★★)
- Tepig (★)
- Emolga (★)
- Whimsicott (★)
- Klinklang (★★★)
- Cryogonal (★)
- Petilil (★)
- Axew (★★)
- Fennekin (★)
- Fletchling (★)
- Spewpa (★★)
- Gogoat (★)
- Helioptile (★)
- Pyroar (★★)
- Clawitzer (★★)
- Honedge (★★)
- Swirlix (★★★)
- Kommo-o (★★★)
- Marshadow (★★★)
- Professor Oak (Master)
- Blue (★★★★)
- Brock (★★)
- Misty (★)
- Lt. Surge (★★★)
- Erika (★)
- Koga (★★)
- Sabrina (★★)
- Blaine (★★)
- Giovanni (★★★)
- Team Rocket (★★)
- Silver (★★★)
- Falkner (★★)
- Bugsy (★★)
- Whitney (★★★)
- Morty (★★)
- Chuck (★)
- Jasmine (★★★)
- Pryce (★★★)
- Clair (Pokémon) (★★★)
- Lance (★★★★)
- Roxanne (★★)
- Brawly (★★)
- Wattson (★)
- Flannery (★★)
- Norman (★★★)
- Winona (★★)
- Tate and Liza (★)
- Juan (★)
- Wallace (★★★)
- Steven Stone (★★★★)
- Maxie & Archie (★★★)
- Roark & Byron (★★)
- Gardenia (★)
- Maylene (★★)
- Crasher Wake (★★)
- Fantina (★)
- Candice (★)
- Volkner (★★★)
- Cynthia (★★★★)
- Cyrus (★★★)
- Looker (★★)
- Cilan, Chili & Cress (★★★)
- Lenora (★★)
- Burgh (★★)
- Elesa (★)
- Clay (★★)
- Skyla (★★)
- Brycen (★)
- Drayden (★★)
- Iris (★★) -> Champion Iris (★★★★)
- Cheren (★★★)
- Roxie (★★)
- Marlon (★)
- N (★★★★)
- Colress (★★★)
- Professor Sycamore (★★★)
- Pokémon Trainer (X & Y) (★★★★)
- Viola & Alexa (★★)
- Grant (★)
- Korrina (★★) -> Successor Korrina (★★★)
- Ramos (★)
- Clemont (★★★)
- Valerie (★★)
- Olympia (★★★)
- Wulfric (★★★)
- Malva (★★)
- Diantha (★★★)
- Team Flare (★)
- Professor Kukui (★★) -> Masked Royal (★★★)
- Hau (★★★)
- Ilima (★)
- Hala (★★)
- Lana (★)
- Kiawe (★★)
- Mallow (★★)
- Olivia (★★★)
- Sophocles (★★)
- Acerola (★)
- Nanu (★★)
- Mina (★)
- Hapu (★★)
- Molayne (★)
- Kahili (★★)
- Guzma (★★)
- Lusamine (★★★) -> Lusamine (Fused) (★★★★)
- Giegue (★★★) -> Giygas (★★★★)
- Pokey Minch (★) -> Porky (★★★)
- Steel Mechorilla (★★★)
- Rick Wheeler (★★★)
- Cain & Abel (★★)
- Gordin (★★)
- Hardin (★★) -> Dark Emperor Hardin (★★★★)
- Gray, Tobin, Kliff & Faye (★)
- Lukas (★★)
- Clair (Fire Emblem) (★★)
- Clive (★)
- Mycen (★★★)
- Mae & Boey (★★★)
- Saber (★★)
- Sonya (★)
- Rudolf (★★★)
- Jedah (★★★)
- Eldigan (★★)
- Zephiel (★★★★)
- Nergal (★★★)
- Tana (★★)
- Ross (★)
- Lute (★★)
- Joshua (★★)
- Amelia (★★)
- Cormag (★★)
- Myrrh (★)
- Caellach (★★)
- Orson (★★★)
- Edward (★★)
- Sumia (★★)
- Donnel (★)
- Kellam (★★)
- Gaius (★★)
- Grima (★★★)
- Felicia (★★)
- Saizo & Kaze (★★)
- Azama & Setsuna (★★)
- Hinata & Oboro (★)
- Hana & Subaki (★★)
- Laslow & Peri (★★★)
- Arthur (Fire Emblem) (★★)
- Itsuki Aoi (★★) -> Itsuki Aoi (Carnage Form) (★★★)
- Fernand (★★)
- Conrad (★★)
- Berkut (★★★★)
- Kiran (★★★★)
- Alfonse & Sharena (★★)
- Linhardt (★★★)
- Ashe (★★)
- Ashen Wolves (★★★)
- Egg (★★)
- Dark Lord Gaol (★★)
- Pyrrhon (★)
- Chaos Kin (★★★)
- Monoeye (★)
- Skuttlers (★★)
- Daphne (★★)
- Souflee (★★★)
- Clubberskull (★★★★)
- Zuree (★)
- Orne (★★★★)
- Flage (★)
- Bumpety Bomb (★★)
- Boom Stomper (★★★)
- Nutski (★)
- Lethinium (★★)
- Megonta (★)
- Mahva (★★★)
- Back Shield (★★)
- Ore Club (★★★)
- Staff (★)
- Lulu (★★)
- Wario Deluxe (★★★★)
- Bulldog (★★)
- Rudy the Clown (★★★)
- The End (★★)
- Senator Armstrong (★★★)
- Classic Sonic (★★★)
- Motobug (★)
- Death Egg Robot (★★★★)
- Mighty & Ray (★)
- Nack the Weasel (★★)
- Tails Doll (★★)
- Chaos (★★) -> Perfect Chaos (★★★★)
- Omochao (★)
- Maria (★★)
- Emerl (★★) -> Gemerl (★★★)
- Dr. Eggman Nega (★★)
- Black Doom (★)
- Mephiles the Dark (★★★)
- Erazor Djinn (★)
- Merlina the Wizard (★★)
- Wisps (★)
- Orbot & Cubot (★)
- Zavok (★★) -> The Deadly Six (★★★)
- Sticks the Badger (★)
- Hard-Boiled Heavies (★★★)
- Custom Hero (★★)
- Hocotate Ship (★)
- Wendell (★★)
- Bad Box Art Mega Man (★★)
- Sniper Joe (★★)
- Heat Man (★)
- Bubble Man (★)
- Magnet Man (★★)
- Needle Man (★)
- Gemini Man (★)
- Bright Man (★★)
- Toad Man (★)
- Pharaoh Man (★★)
- Ring Man (★)
- Dust Man (★)
- Wave Man (★)
- Stone Man (★★)
- Gyro Man (★)
- Star Man (Mega Man) (★★)
- Charge Man (★)
- Crystal Man (★)
- Blizzard Man (★★★)
- Centaur Man (★)
- Flame Man (★★★)
- Plant Man (★★★)
- Yamato Man (★★)
- Freeze Man (★)
- Junk Man (★)
- Burst Man (★★★)
- Cloud Man (★)
- Spring Man (Mega Man) (★★)
- Shade Man (★)
- Turbo Man (★)
- Tengu Man (★★)
- Astro Man (★★)
- Clown Man (★★)
- Search Man (★)
- Frost Man (★)
- Grenade Man (★★)
- Aqua Man (★★)
- Concrete Man (★★)
- Tornado Man (★★★)
- Splash Woman (★)
- Plug Man (★)
- Jewel Man (★)
- Hornet Man (★)
- Magma Man (★)
- Blade Man (★★)
- Pump Man (★★★)
- Commando Man (★)
- Chill Man (★)
- Sheep Man (★)
- Strike Man (★)
- Nitro Man (★)
- Solar Man (★)
- Iris (★★)
- Ciel (★★)
- Copy X (★★★)
- Sage Harpuia (★★★★)
- Juno (★★★)
- Servbots (★)
- Bass.EXE (★★★)
- Harpnote (★)
- Mr. Dream (★★★★)
- Referee (★★★★)
- Aran Ryan (★)
- Disco Kid (★)
- Clyde (★)
- Inky (★★)
- Pinky (★★★)
- Blinky (★★★★)
- Power Pellet (★★★)
- Toc-Man (★★) -> Orson (★★★)
- Egil (★★★)
- Zanza (★★★★)
- Nia (★★★) -> Nia (Blade Form) (★★★★)
- Brighid (★★★)
- Pandoria (★)
- Dromarch (★★)
- Azurda (Larval) (★) -> Azurda (Titan) (★★★)
- Retsu (★)
- Birdie (★★)
- Eagle (★★)
- Adon (★)
- Rose (★★)
- Juni & Juli (★★)
- Guy (★★)
- Sodom (★)
- Rolento (★★★)
- Maki (★★)
- Ingrid (★★★)
- Alex (★★★)
- Sean (★)
- Oro (★★)
- Dudley (★★)
- Elena (★★)
- Necro (★)
- Hugo (★★★)
- Urien (★★★)
- Remy (★)
- Q (★★★)
- Makoto (★★)
- Twelve (★)
- Gill (★★★★)
- C. Viper (★★)
- El Fuerte (★★)
- Rufus (★)
- Gouken (★★★★)
- Seth (★★★)
- Hakan (★★)
- Decapre (★)
- Rashid (★★★)
- F.A.N.G. (★★)
- Ed (★)
- Abigail (★)
- Menat (★★)
- G (★★★)
- Chocobo (★)
- Moogle (★★)
- Cactuar (★)
- Ramuh (★★)
- Odin (★★)
- Leviathan (★)
- Warrior of Light (★★★★)
- Garland (★★) -> Chaos (Final Fantasy) (★★★)
- Firion (★★)
- The Emperor (★★★)
- Onion Knight (★)
- Cecil Harvey (Dark Knight) (★★★) -> Cecil Harvey (Paladin) (★★★★)
- Kain (★)
- Golbez (★★★)
- Bartz (★★)
- Gilgamesh (★★★★)
- Exdeath (★★★)
- Terra Branford (★★★)
- Locke (★★)
- Kefka (★★★★)
- Sephiroth (★★★★)
- Squall (★★★)
- Laguna (★★)
- Rinoa (★)
- Zidane (★★)
- Kuja (★★)
- Tidus (★★★)
- Yuna (★★★)
- Jecht (★★★)
- Shantotto (★★★)
- Kam’lanaut (★★)
- Vaan (★)
- Gabranth (★★★)
- Vayne (★★★★)
- Lightning Farron (★★★)
- Snow (★★)
- Y’shtola (★★★)
- Zenos (★★)
- Noctis (★★★★)
- Ardyn (★★★)
- Ramza (★★)
- Ace (★★★)
- Lann & Reynn (Lilikin) (★) -> Lann & Reynn (★★★)
- Inner Agent 3 (★★★★)
- Salmonids (★★)
- Eric Lecarde (★★)
- Protagonist (Persona 3) (★★★)
- Aigis (★★★)
- Yu Narukami (★★★)
- Dragonlord (★★★) -> Dragonlord (Dragon) (★★★★)
- Kiryl (★★)
- Jessica Albert (★★★)
- Heroes Throughout History (★★★★)
- Klungo (★)
- L.O.G. (★)
- Tung Fu Rue (★★)
- Blue Mary (★★)
- Mai Shiranui (★★★)
- Rock Howard (★★★)
- Rugal Bernstein (★★★) -> Omega Rugal (★★★★)
- Chizuru Kagura (★★)
- Orochi (★★★★)
- Kula Diamond (★★)
- Ash Crimson (★★)
- Kukri (★)
- Yuri Sakazaki (★★)
- Earthquake (★★)
- Fio Germi (★★★)
- Lola Pop (★★★)
- Misango (★★)
- Springtron (★★)
- Dr. Coyle (★★★)
- Sheep, Cow & Chicken (★★)
- Lee Chaolan (★)
- Kunimitsu (★★)
- Jun Kazama (★★★★)
- Lei Wulong (★★)
- Devil Kazuya (★★★)
- Hwoarang (★★)
- Bryan Fury (★)
- Julia Chang (★★)
- Mokujin (★)
- Ogre (★★★) -> True Ogre (★★★★)
- Steve Fox (★)
- Craig Marduk (★★★)
- Raven (★★)
- Lili (★★★)
- Alisa Bosconovitch (★★★)
- Bob Richards (★★)
- Kazumi Mishima (★★★★)
- Lucky Chloe (★)
- Leroy Smith (★★★)
- Fahkumram (★★★)
- Lidia Sobieska (★★★)
- Shadow (Kingdom Hearts) (★)
- Donald Duck & Goofy (★★★)
- Naminé (★★)
- Marluxia (★★)
- Terra (★★) -> Lingering Will (★★★★)
- Young Xehanort (★★★) -> Master Xehanort (★★★★)
- Captain N (★★)
- Mike Jones (★★)
- John Raimi (★★)
- Katherine Sunday (★)
- Jean-Eric & Oceana Louvier (★)
- Matt (★★★★)
- Monkey Watch (★★★★)
- Frogger (★)
- Goemon (★★★)
- TwinBee (★)
- Master Higgins (★★)
- Bonk (★★)
- Pyramid Head (★★★)
- Mimi & Nyami (★)
- Alex Kidd (★★)
- Opa-Opa (★★)
- Ristar (★★)
- Axel Stone (★★★)
- Joe Musashi (★★★)
- Gilius Thunderhead (★★★)
- Arle Nadja (★)
- Alis Landale (★★)
- Sketch Turner (★)
- Segata Sanshiro (★★★★)
- NiGHTS (★★★)
- Sakura Shinguji (★★★)
- Magician Type-0 (★★★★)
- Ulala (★★★★)
- Beat (★★)
- Ryo Hazuki (★★)
- Aiai (★★★)
- Vyse (★★★)
- Zephyr, Vashyron & Leanne (★★)
- Captain Commando (★★)
- Strider Hiryu (★★)
- Red Arremer (★★★★)
- Rad Spencer (★★)
- Mike Haggar (★★)
- Ryu (Breath of Fire) (★★★)
- Nina (Breath of Fire) (★★)
- Demitri (★★★)
- Hsien-Ko (★★)
- Jon Talbain (★★)
- Akira Kazama (★★★)
- Hayato Kanzaki (★★)
- Edward Falcon (★)
- Dante (★★★★)
- Viewtiful Joe (★★)
- Phoenix Wright (★★★)
- Frank West (★★)
- Amaterasu (★★)
- Pooka & Fygar (★)
- Susumu Hori (★)
- Mappy (★★)
- Rick Taylor (★★)
- Solvalou (★★)
- Gilgamesh (★)
- Valkyrie (★★★)
- Reiko Nagase (★)
- Wild Dog (★★★★)
- Nightmare (Soul Calibur) (★★★★)
- Klonoa (★★)
- KOS-MOS (★★★★)
- Lloyd Irving (★★★)
- Yuri Lowell (★★)
- Cipher (★★★)
- Reiji & Xiaomu (★★★)
- Solaire of Astora (★★★)
- Space Invaders (★★★)
- The Boy & His Dog (★★)
- Crono (★★★)
- Frog (Chrono Trigger) (★★)
- Magus (★★)
- Lara Croft (★★★★)
- Aya Brea (★★)
- Fei Fong Wong (★★)
- Neku Sakuraba (★★)
- Agnés Oblige (★★★)
- Sans (★★★★)
- Altaïr (★★★)
- Vault Boy (★★★★)
- Dragonborn (★★★)
- Doom Slayer (★★★★)
- Mega Man 11
- Block Man & Acid Man (★★)
- Impact Man & Bounce Man (★★)
- Fuse Man & Tundra Man (★★★)
- Torch Man & Blast Man (★★)
- Yoshi’s Crafted World
- Blockafeller (★★)
- Poochy Pups (★)
- Dragalia Lost
- Euden (★★) -> Gala Euden (★★★★)
- Midgardsormr (★★★)
- Luigi’s Mansion 3
- Gooigi (★★)
- Hellen Gravely (★★★)
- Mario Kart Tour
- Mario (Musician) (★★)
- Peach (Vacation) (★)
- Rosalina (Halloween) (★)
- Pokémon Mystery Dungeon: Rescue Team DX
- Rescue Team (★★)
- Team Meanies (★)
- Team A.C.T. (★★★)
- Xenoblade Chronicles: Future Connected
- Shulk (Future Connected) (★★★★)
- Kino & Nene (★★)
- Pikmin 3 Deluxe
- Louie (★★★)
- Age of Calamity
- King Rhoam (★★★★)
- Super Mario 3D World + Bowser’s Fury
- Cat Peach (★★★)
- Game Builder Garage
- Nodons (★★★)
- NEO: The World Ends With You
- Wicked Twisters (★★★)
- Sho Minanimoto (★★★★)
- Shin Megami Tensei V
- Nahobino (★★★★)
- Pokémon Brillint Diamond & Shining Pearl
- Lucas & Dawn (★★★)
- Barry (★)
- Danganronpa
- Makoto & Kyoko (★★★)
- Hajime & Chiaki (★)
- Kaede & Shuichi (★★)
- Monokuma (★★★) -> Junko Enoshima (★★★★)
- Pokémon Legends: Arceus
- Hisuian Decidueye (★★★)
- Hisuian Typhlosion (★★★)
- Hisuian Samurott (★★★)
- Hisuian Zoroark (★★)
- Kirby and the Forgotten Land
- Elfilin (★★★)
- Clawroline (★★)
- Mouthful Mode (★)
- Nintendo Switch Sports
- Sportsmates (★★)
- Xenoblade Chronicles 3
- Noah & Mio (★★★★)
- Eunie & Taion (★★★)
- Lanz & Sena (★★)
- Splatoon 3
- Deep Cut (★★★)
- Bayonetta 3
- Bayonetta (Bayonetta 3) (★★★)
- Viola (★★)
- Pokémon Scarlet & Violet
- Sprigatito, Fuecoco & Quaxly (★★★)
- Armarouge & Ceruledge (★★)
- Koraidon & Miraidon (★★★★)